README.md

ADP1 Notebooks

Jupyter notebooks for ADP1 (Acinetobacter baylyi) genome analysis and modeling.

Notebooks

The notebooks/ directory contains the following analysis notebooks:

• ADP1AIGeneAssociation.ipynb - AI-based gene association analysis
• ADP1AIModelCompare.ipynb - Model comparison using AI approaches
• ADP1AnnotationAnalysis.ipynb - Genome annotation analysis
• ADP1DGOAAnalysis.ipynb - DGOA (Directed Gene Ontology Analysis)
• ADP1ModelReview.ipynb - Metabolic model review and validation

Data

• notebooks/data/ - Input data files including proteomics and published models
• notebooks/datacache/ - Cached processed data
• notebooks/nboutput/ - Notebook output files

Usage

jupyter notebook notebooks/